RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 020361
(327 letters)
>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A
{Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A*
2vcg_A*
Length = 369
Score = 374 bits (962), Expect = e-130
Identities = 96/316 (30%), Positives = 153/316 (48%), Gaps = 14/316 (4%)
Query: 13 IELKNFSPASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTYATATTFQESLAA 72
+ A+ DI H+ A++ +++ + + G T + + +
Sbjct: 59 LTPIAAVAATDADILRAHSAAHLENMKRVSNLPTGGDTG----DGITMMGNGGLEIARLS 114
Query: 73 AGAGIALVDSVVA-ASKNRPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRA 131
AG + L V G+AL+ PPGHHA MGFC+F N ++AA YA+
Sbjct: 115 AGGAVELTRRVATGELSA------GYALVNPPGHHAPHNAAMGFCIFNNTSVAAGYARAV 168
Query: 132 HGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQDGSY-PGTGKIDEVGRGDGEGSTL 190
G++RV I+D+DVHHGNGT D +++DP + +S HQ + P +G E G G+G G +
Sbjct: 169 LGMERVAILDWDVHHGNGTQDIWWNDPSVLTISLHQHLCFPPDSGYSTERGAGNGHGYNI 228
Query: 191 NLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYML 250
N+PLP GSG+ A +V++P + ++P LI+V +G+DA +LDPLA + T + +
Sbjct: 229 NVPLPPGSGNAAYLHAMDQVVLPALRAYRPQLIIVGSGFDASMLDPLARMMVTADGFRQM 288
Query: 251 AANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFRAFLGEPSKASEFDN--PAILYE 308
A A D+C R VF EGGY+ + L + G S + +
Sbjct: 289 ARRTIDCAADICDGRIVFVQEGGYSPHYLPFCGLAVIEELTGVRSLPDPYHEFLAGMGGN 348
Query: 309 EPSAKVKQAIERVKHI 324
+ AIE + +
Sbjct: 349 TLLDAERAAIEEIVPL 364
>2pqp_A HD7A, histone deacetylase 7A; HDAC, structural genomics, structural
genomics consortium, SGC; HET: TSN; 1.80A {Homo sapiens}
PDB: 2pqo_A* 2nvr_A 3c0y_A 3c0z_A 3c10_A* 2vqm_A*
2vqj_A* 2vqw_G 2vqq_A* 2vqo_A* 2vqv_A*
Length = 421
Score = 344 bits (884), Expect = e-117
Identities = 103/342 (30%), Positives = 159/342 (46%), Gaps = 41/342 (11%)
Query: 13 IELKNFSPASVDDIASVHARAYVSGLE------------KAMDRASQQGIILIEGSGP-- 58
E AS++++ SVH+ +V K +Q+ +++ G
Sbjct: 82 CECLRGRKASLEELQSVHSERHVLLYGTNPLSRLKLDNGKLAGLLAQRMFVMLPCGGVGV 141
Query: 59 ----TYATATTFQESLAAAGAGIALVDSVVA-ASKNRPDPPLGFALIRPPGHHAIPKGPM 113
+ + + AAG+ L V + KN GFA++RPPGHHA M
Sbjct: 142 DTDTIWNELHSSNAARWAAGSVTDLAFKVASRELKN------GFAVVRPPGHHADHSTAM 195
Query: 114 GFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQDGS--- 170
GFC F +VAIA R Q+ ++ I+D+DVHHGNGT FY DP + ++S H+
Sbjct: 196 GFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNF 255
Query: 171 YPGTGKIDEVGRGDGEGSTLNLPLPG----GSGDTAMRTVFHEVIVPCAQRFKPDLILVS 226
+PG+G +DEVG G GEG +N+ G GD F V++P A+ F PDL+LVS
Sbjct: 256 FPGSGAVDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVS 315
Query: 227 AGYDAHVLD--PLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVA 284
AG+DA PL + + + Q +L G V LEGG++L ++ +
Sbjct: 316 AGFDAAEGHPAPLGGYHVSAKCFGYMT----QQLMNLAGGAVVLALEGGHDLTAICDASE 371
Query: 285 DSFRAFLGEPSKASEFDNPAILYEEPSAKVKQAIERVKHIHS 326
A LG + + ++P+ +++E V +HS
Sbjct: 372 ACVAALLGNR---VDPLSEEGWKQKPNLNAIRSLEAVIRVHS 410
>3q9b_A Acetylpolyamine amidohydrolase; HDAC, polyamines, arginase fold,
deacetylase, hydrolase-HYDR inhibitor complex; HET: B3N;
2.25A {Mycoplana ramosa} PDB: 3q9f_A* 3q9c_A* 3q9e_A*
Length = 341
Score = 312 bits (801), Expect = e-106
Identities = 80/315 (25%), Positives = 131/315 (41%), Gaps = 42/315 (13%)
Query: 7 FRGSEIIELKNFSPASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGS---------- 56
+ + ++ + ++ + VH Y++ LE A DR G +
Sbjct: 40 VKEAGFDDVVAPARHGLETVLKVHDAGYLNFLETAWDRWKAAGYKGEAIATSFPVRRTSP 99
Query: 57 ----------------GPTYATATTFQESLAAAGAGIALVDSVVAASKNRPDPPLGFALI 100
T + T++ +L++ + I D + A K F+L
Sbjct: 100 RIPTDIEGQIGYYCNAAETAISPGTWEAALSSMASAIDGADLIAAGHKA------AFSLC 153
Query: 101 RPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDI 160
RPPGHHA G+C N A+AA+ G K++ I+D D HHGNGT D FY+ D+
Sbjct: 154 RPPGHHAGIDMFGGYCFINNAAVAAQRL-LDKGAKKIAILDVDFHHGNGTQDIFYERGDV 212
Query: 161 FFLSTHQDGS---YPGTGKIDEVGRGDGEGSTLNLPLPGGSGDTAMRTVFHEVIVPCAQR 217
FF S H D + G +E G+G G G+T N P+ G+ + + +
Sbjct: 213 FFASLHGDPAEAFPHFLGYAEETGKGAGAGTTANYPMGRGTPYSVWGEALTDSL-KRIAA 271
Query: 218 FKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLN 277
F + I+VS G D DP++ + T+ Y + I G + +EGGY +
Sbjct: 272 FGAEAIVVSLGVDTFEQDPISFFKLTSPDYITMGRTIAA-----SGVPLLVVMEGGYGVP 326
Query: 278 SLSYSVADSFRAFLG 292
+ +VA+ + G
Sbjct: 327 EIGLNVANVLKGVAG 341
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A
{Burkholderia pseudomallei 1710B}
Length = 362
Score = 305 bits (782), Expect = e-103
Identities = 82/308 (26%), Positives = 126/308 (40%), Gaps = 42/308 (13%)
Query: 13 IELKNFSPASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGP-------------- 58
++ + IA+VH Y+ LE + +
Sbjct: 66 FPVREPDDFGIAPIAAVHDTHYLRFLETVHREWKAMPEDWGDEAMSNIFVREPNALRGVL 125
Query: 59 -----------TYATATTFQESLAAAGAGIALVDSVVAASKNRPDPPLGFALIRPPGHHA 107
T++ + +A + +A +V + +AL RPPGHHA
Sbjct: 126 AQAARHLADGSCPVGEHTWRAAYWSAQSALAAAAAVRDGAPA------AYALCRPPGHHA 179
Query: 108 IPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQ 167
GFC N AIAA+ + H RV ++D D+HHG G + FY D+ ++S H
Sbjct: 180 RVDAAGGFCYLNNAAIAAQALRARHA--RVAVLDTDMHHGQGIQEIFYARRDVLYVSIHG 237
Query: 168 DGS--YPG-TGKIDEVGRGDGEGSTLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLIL 224
D + YP G DE G G+G G +NLP+P GS + A + + +RF PD ++
Sbjct: 238 DPTNFYPAVAGFDDERGAGEGLGYNVNLPMPHGSSEAAFFERVDDAL-RELRRFAPDALV 296
Query: 225 VSAGYDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVA 284
+S G+D + DP + + TT + L I L V EGGY++ SL +
Sbjct: 297 LSLGFDVYRDDPQSQVAVTTDGFGRLGHLIGALRL-----PTVIVQEGGYHIESLEANAR 351
Query: 285 DSFRAFLG 292
F F
Sbjct: 352 SFFGGFGA 359
>1c3p_A Protein (HDLP (histone deacetylase-like protein) ); alpha/beta
fold, lyase; 1.80A {Aquifex aeolicus} SCOP: c.42.1.2
PDB: 1c3r_A* 1c3s_A*
Length = 375
Score = 259 bits (663), Expect = 1e-84
Identities = 68/283 (24%), Positives = 115/283 (40%), Gaps = 24/283 (8%)
Query: 20 PASVDDIASVHARAYVSGLEKAMDRASQQGIILIE---GSGPTYATATTFQESLAAAGAG 76
PA+ +++ H Y++ L +A + G + F S A G+
Sbjct: 51 PATKEELLLFHTEDYINTLMEAERCQCVPKGAREKYNIGGYENPVSYAMFTGSSLATGST 110
Query: 77 IALVDSVVAASKNRPDPPLGFALIRPPG--HHAIPKGPMGFCVFGNVAIAARYAQRAHGL 134
+ ++ + G P G HHA GFC N A+ Y ++ G
Sbjct: 111 VQAIEEFLK----------GNVAFNPAGGMHHAFKSRANGFCYINNPAVGIEYLRK-KGF 159
Query: 135 KRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQDGSY---PGTGKIDEVGRGDGEGSTLN 191
KR+ ID D HH +G +AFYD +F LS HQ Y G ++E+G G G+G LN
Sbjct: 160 KRILYIDLDAHHCDGVQEAFYDTDQVFVLSLHQSPEYAFPFEKGFLEEIGEGKGKGYNLN 219
Query: 192 LPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLA 251
+PLP G D + + + F+P++ L+ G D + D L+ + +
Sbjct: 220 IPLPKGLNDNEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSKFNLSNVAFLKAF 279
Query: 252 ANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFRAFLGEP 294
++++ V+ GGY+ +L+ + + G
Sbjct: 280 NIVREVFG-----EGVYLGGGGYHPYALARAWTLIWCELSGRE 317
>3ew8_A HD8, histone deacetylase 8; hydrolase, HDAC, metalloenzyme,
arginase fold, HDAC8, histon deacetylase, hydroxamate
inhibitor, unliganded; HET: B3N; 1.80A {Homo sapiens}
PDB: 3f06_A* 3ezp_A* 3ezt_A* 3f0r_A* 3f07_A* 2v5w_A*
2v5x_A* 3ewf_A* 3mz4_A* 3mz6_A* 3mz7_A* 3rqd_A* 3mz3_A*
1t64_A* 1t67_A* 1t69_A* 1vkg_A* 1w22_A* 3sff_A* 3sfh_A*
Length = 388
Score = 241 bits (618), Expect = 1e-77
Identities = 69/298 (23%), Positives = 111/298 (37%), Gaps = 17/298 (5%)
Query: 20 PASVDDIASVHARAYVSGLEKA-MDRASQQGIILIEGSGP-TYATATTFQESLAAAGAGI 77
AS++++A+ H AY+ L+K + + G G AT F + A GA I
Sbjct: 61 VASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYLCPATEGIFDYAAAIGGATI 120
Query: 78 ALVDSVVAASKNRPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRV 137
++ HHA GFC + + +R +R+
Sbjct: 121 TAAQCLIDGMCKV-----AINW-SGGWHHAKKDEASGFCYLNDAVLGILRLRRKF--ERI 172
Query: 138 FIIDFDVHHGNGTNDAFYDDPDIFFLSTHQDGS--YPGTGKIDEVGRGDGEGSTLNLPLP 195
+D D+HHG+G DAF + +S H+ +PGTG + +VG G G ++N+P+
Sbjct: 173 LYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQ 232
Query: 196 GGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANIK 255
G D + V+ Q F P +++ G D DP+ S T I
Sbjct: 233 DGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYIL 292
Query: 256 QLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFRAFLGEPSKASEFDNPAILYEEPSAK 313
Q + GGYNL + + LG+ + D+ P
Sbjct: 293 QWQL-----ATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYV 345
>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A
{Homo sapiens}
Length = 376
Score = 239 bits (611), Expect = 6e-77
Identities = 66/313 (21%), Positives = 110/313 (35%), Gaps = 20/313 (6%)
Query: 14 ELKNFSPASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGP---TYATATTFQESL 70
+ AS D+ H+ Y+ L++ Q + F+
Sbjct: 46 IVFKPYQASQHDMCRFHSEDYIDFLQRVSPTNMQGFTKSLNAFNVGDDCPVFPGLFEFCS 105
Query: 71 AAAGAGIALVDSVVAASKNRPDPPLGFALIRPPG-HHAIPKGPMGFCVFGNVAIAARYAQ 129
GA + + D A+ G HHA GFC ++ I
Sbjct: 106 RYTGASLQGATQLN---NKICD----IAINWAGGLHHAKKFEASGFCYVNDIVIGILELL 158
Query: 130 RAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQDGS--YPGTGKIDEVGRGDGEG 187
+ H RV ID D+HHG+G +AFY + +S H+ G+ +PGTG + EVG G
Sbjct: 159 KYH--PRVLYIDIDIHHGDGVQEAFYLTDRVMTVSFHKYGNYFFPGTGDMYEVGAESGRY 216
Query: 188 STLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTY 247
LN+PL G D + + +F VI ++P I++ G D+ D L + +
Sbjct: 217 YCLNVPLRDGIDDQSYKHLFQPVINQVVDFYQPTCIVLQCGADSLGCDRLGCFNLSIRGH 276
Query: 248 YMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFRAFLGEPSKASEFDNPAILY 307
+K + GGY + +++ + E + Y
Sbjct: 277 GECVEYVKSFNI-----PLLVLGGGGYTVRNVARCWTYETSLLVEEAISEELPYSEYFEY 331
Query: 308 EEPSAKVKQAIER 320
P + +
Sbjct: 332 FAPDFTLHPDVST 344
>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase;
HET: LLX NHE; 2.05A {Homo sapiens}
Length = 367
Score = 238 bits (610), Expect = 8e-77
Identities = 57/280 (20%), Positives = 105/280 (37%), Gaps = 19/280 (6%)
Query: 20 PASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGP---TYATATTFQESLAAAGAG 76
A+ +++ H+ Y+ L + ++ F+ + G
Sbjct: 52 KATAEEMTKYHSDEYIKFLRSIRPDNMSEYSKQMQRFNVGEDCPVFDGLFEFCQLSTGGS 111
Query: 77 IALVDSVVAASKNRPDPPLGFALIRPPG-HHAIPKGPMGFCVFGNVAIAARYAQRAHGLK 135
+A + A+ G HHA GFC ++ +A + H +
Sbjct: 112 VAGAVKLNRQQT-------DMAVNWAGGLHHAKKSEASGFCYVNDIVLAILELLKYH--Q 162
Query: 136 RVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQDGSY-PGTGKIDEVGRGDGEGSTLNLPL 194
RV ID D+HHG+G +AFY + +S H+ G Y PGTG + ++G G G+ +N P+
Sbjct: 163 RVLYIDIDIHHGDGVEEAFYTTDRVMTVSFHKYGEYFPGTGDLRDIGAGKGKYYAVNFPM 222
Query: 195 PGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANI 254
G D + +F +I + ++P +++ G D+ D L T + +
Sbjct: 223 RDGIDDESYGQIFKPIISKVMEMYQPSAVVLQCGADSLSGDRLGCFNLTVKGHAKCVEVV 282
Query: 255 KQLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFRAFLGEP 294
K + GGY + +++ L
Sbjct: 283 KTFNL-----PLLMLGGGGYTIRNVARCWTYETAVALDCE 317
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 47.0 bits (111), Expect = 6e-06
Identities = 68/427 (15%), Positives = 133/427 (31%), Gaps = 136/427 (31%)
Query: 2 ELTSEF-RGSEI----IELKNFSPASVDDIASVHARAYVSGL-----------EKAMDRA 45
E + + G++I +L + ++ + + Y++ A+ RA
Sbjct: 90 EFENCYLEGNDIHALAAKLLQENDTTLVKTKEL-IKNYITARIMAKRPFDKKSNSALFRA 148
Query: 46 SQQG---IILI-EGSGPT----------YATATTFQESL--AAAGAGIALVDSVVAASKN 89
+G ++ I G G T Y T L +A L+ + + A K
Sbjct: 149 VGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKV 208
Query: 90 RPDPPLGFALI--------RPPGHH--AIP-KGPM-GFCVFGNVAIAARYAQRAHGLKRV 137
G ++ P + +IP P+ G + + A+ G R
Sbjct: 209 FTQ---GLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRS 265
Query: 138 FIIDFDVHHGN----------GTNDAFYDDPD-----IFF--LSTHQDGSYPGTG---KI 177
++ H + ++F+ +FF + ++ +YP T I
Sbjct: 266 YLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYE--AYPNTSLPPSI 323
Query: 178 --DEVGRGDGEGS------------------TLNLPLPGG----------------SGDT 201
D + +G S N LP G SG
Sbjct: 324 LEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPP 383
Query: 202 ----AMRTVFHEVI---------VPCAQRFKPDLIL----VSAGYDAHVLDPLASLQFTT 244
+ + +P ++R K V++ + +H+L P + L
Sbjct: 384 QSLYGLNLTLRKAKAPSGLDQSRIPFSER-KLKFSNRFLPVASPFHSHLLVPASDLINKD 442
Query: 245 GTYYMLAANIKQLAKDLCGSRC-VFFLEGGYNLNSLSYSVADS-FRAFLGEP---SKASE 299
++ N+ AKD+ + V+ G +L LS S+++ + P ++
Sbjct: 443 ----LVKNNVSFNAKDI---QIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQ 495
Query: 300 FDNPAIL 306
F IL
Sbjct: 496 FKATHIL 502
Score = 30.8 bits (69), Expect = 0.67
Identities = 13/56 (23%), Positives = 22/56 (39%), Gaps = 15/56 (26%)
Query: 263 GSRCVFFLEGGYNLNSLSYSVA----DSFRAFLGEPSKASEFDNPAILYEEPSAKV 314
GS LE + + S+ +A + F L EP++ D +EP+
Sbjct: 14 GS-----LEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAAD------DEPTTPA 58
Score = 29.2 bits (65), Expect = 2.2
Identities = 51/313 (16%), Positives = 86/313 (27%), Gaps = 114/313 (36%)
Query: 74 GAGIALVDSVVAASK--NRPD----PPLGFALIRPPGHHAIPKGPMGFCV-FGNV---AI 123
G G+ L + AA NR D GF+++ + P+ + FG I
Sbjct: 1630 GMGMDLYKTSKAAQDVWNRADNHFKDTYGFSIL-----DIVINNPVNLTIHFGGEKGKRI 1684
Query: 124 AARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQDGSYPGTGKIDEVGRG 183
Y+ + F+ D IF SY
Sbjct: 1685 RENYSA----------MIFE-----TIVDGKLKTEKIFKEINEHSTSY-----TFR---- 1720
Query: 184 DGEGSTLNL-----PLPGGSGDTAMRTV----FHEV----IVPCAQRFKPDLILVSAG-- 228
E L+ P A+ + F ++ ++P F AG
Sbjct: 1721 -SEKGLLSATQFTQP--------ALTLMEKAAFEDLKSKGLIPADATF--------AGHS 1763
Query: 229 ---YDAHV-------LDPLASLQFTTG---------------TYYMLAANIKQLAKDLCG 263
Y A ++ L + F G Y M+A N ++A
Sbjct: 1764 LGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQ 1823
Query: 264 SRCVFFLE------GG------YNLNSLSYSVADSFRAF--LGEPSKASEFDNPAILYEE 309
+ +E G YN+ + Y A RA + + I+
Sbjct: 1824 EALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDII--- 1880
Query: 310 PSAKVKQAIERVK 322
+ ++E V+
Sbjct: 1881 -ELQKSLSLEEVE 1892
>2q8p_A Iron-regulated surface determinant E; helical backbone metal
receptor superfamily, metal transport; HET: HEM; 1.95A
{Staphylococcus aureus subsp} PDB: 2q8q_A*
Length = 260
Score = 31.2 bits (71), Expect = 0.35
Identities = 7/46 (15%), Positives = 14/46 (30%), Gaps = 5/46 (10%)
Query: 219 KPDLILVSAGYDAHVLDPLASL-----QFTTGTYYMLAANIKQLAK 259
KP +L + + L + + + +I QL
Sbjct: 60 KPTHVLSVSTIKDEMQPFYKQLNMKGYFYDFDSLKGMQKSITQLGD 105
>2yfq_A Padgh, NAD-GDH, NAD-specific glutamate dehydrogenase;
oxidoreductase; 2.94A {Peptoniphilus asaccharolyticus}
Length = 421
Score = 31.0 bits (71), Expect = 0.59
Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 12/69 (17%)
Query: 118 FGNVAI-AARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDP--DIFFLSTHQD-----G 169
FGNV + +R G K I ++D + GN A Y++ D L +++
Sbjct: 220 FGNVGTFTVKNIERQ-GGKVCAIAEWDRNEGNY---ALYNENGIDFKELLAYKEANKTLI 275
Query: 170 SYPGTGKID 178
+PG +I
Sbjct: 276 GFPGAERIT 284
>3h74_A Pyridoxal kinase; PSI-II, structural genomics, prote structure
initiative, NEW YORK SGX research center for STRU
genomics, nysgxrc; 1.30A {Lactobacillus plantarum} PDB:
3hyo_A* 3ibq_A*
Length = 282
Score = 30.6 bits (70), Expect = 0.67
Identities = 8/34 (23%), Positives = 12/34 (35%), Gaps = 2/34 (5%)
Query: 144 VHHGNGTNDAFYDDPDIFFLSTHQ--DGSYPGTG 175
V + A+ D+ + G Y GTG
Sbjct: 181 VQRADQIGCAWLDEAGHVQYCGARRLPGHYNGTG 214
>3gk6_A Integron cassette protein VCH_CASS2; novel, oyster PO HOLE, USA,
structural genomics, PSI-2; HET: MSE PE4; 1.80A {Vibrio
cholerae}
Length = 170
Score = 28.8 bits (64), Expect = 1.7
Identities = 15/113 (13%), Positives = 30/113 (26%), Gaps = 8/113 (7%)
Query: 43 DRASQQGIILIEGSGPTYATATTFQESLAAAGAGIALVDSVVAASKNRPDPPLGFALIRP 102
++ + Y T ++ GA + S + +
Sbjct: 57 EKFYLNAAPKLTDKSKVYGLYTNYESD--FTGAFDVIACSDTLSPQ---LLSESVKTKVS 111
Query: 103 PGHHAI--PKGPMGFCVFGN-VAIAARYAQRAHGLKRVFIIDFDVHHGNGTND 152
G + G M V + +A KR + DF+ + T +
Sbjct: 112 SGKYVTFSATGEMPQVVIDLWNEVWNYFASEHCPHKRAYTTDFEYYKSANTVE 164
>1gtm_A Glutamate dehydrogenase; oxidoreductase, NAD, NADP; 2.20A
{Pyrococcus furiosus} SCOP: c.2.1.7 c.58.1.1 PDB: 1bvu_A
1euz_A
Length = 419
Score = 29.4 bits (67), Expect = 1.8
Identities = 8/35 (22%), Positives = 16/35 (45%), Gaps = 3/35 (8%)
Query: 118 FGNVAI-AARYAQRAHGLKRVFIIDFD--VHHGNG 149
+GN A+ G+K V + D +++ +G
Sbjct: 220 YGNAGYYLAKIMSEDFGMKVVAVSDSKGGIYNPDG 254
>3lhs_A Ferrichrome ABC transporter lipoprotein; siderophore, iron,
receptor, binding protein, T protein; HET: SF8; 1.30A
{Staphylococcus aureus subsp} PDB: 3eiw_A 3eix_A*
3li2_A*
Length = 296
Score = 28.9 bits (65), Expect = 2.4
Identities = 13/47 (27%), Positives = 19/47 (40%), Gaps = 6/47 (12%)
Query: 219 KPDLILVSAGYDAHVLDPLA------SLQFTTGTYYMLAANIKQLAK 259
KPDLI+ + + L SL+ G Y + K +AK
Sbjct: 85 KPDLIIADSSRHKGINKELNKIAPTLSLKSFDGDYKQNINSFKTIAK 131
>3ohs_X Trans-1,2-dihydrobenzene-1,2-DIOL dehydrogenase; dimeric
dihydrodiol dehydrogenase, MDD, oxidoreductase; 1.90A
{Macaca fascicularis} PDB: 2o48_X 2poq_X* 2o4u_X
Length = 334
Score = 28.0 bits (63), Expect = 3.9
Identities = 12/40 (30%), Positives = 19/40 (47%), Gaps = 4/40 (10%)
Query: 121 VAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDI 160
VA+AAR RA + F D+ G+ + DP++
Sbjct: 32 VAVAARDLSRA----KEFAQKHDIPKAYGSYEELAKDPNV 67
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 27.9 bits (62), Expect = 6.2
Identities = 10/61 (16%), Positives = 17/61 (27%), Gaps = 7/61 (11%)
Query: 45 ASQQGIILIEGSGPTYATAT---TFQESLAAAGAGIAL--VDSVVAASKNRPDPPL--GF 97
++ ++LI SGP T ES+ I + + F
Sbjct: 1085 SAWVNMLLISSSGPIKTPVGACATSVESVDIGVETILSGKARICIVGGYDDFQEEGSFEF 1144
Query: 98 A 98
Sbjct: 1145 G 1145
>1c8b_A Spore protease; novel fold, hydrolase; 3.00A {Bacillus megaterium}
SCOP: c.56.1.2
Length = 371
Score = 27.5 bits (61), Expect = 7.5
Identities = 12/45 (26%), Positives = 20/45 (44%), Gaps = 10/45 (22%)
Query: 195 PGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLAS 239
PG G T + T ++I ++ PD I+ +D LA+
Sbjct: 164 PGVMGMTGIETS--DIIFGVVKKVNPDFII--------AIDALAA 198
>2vpt_A Lipolytic enzyme; esterase, hydrolase; 1.40A {Clostridium
thermocellum}
Length = 215
Score = 26.8 bits (59), Expect = 8.5
Identities = 8/37 (21%), Positives = 15/37 (40%)
Query: 120 NVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYD 156
N I Q+A+ K+V+ + + D +D
Sbjct: 139 NAVIPGIVQQKANAGKKVYFVKLSEIQFDRNTDISWD 175
>1g8t_A Nuclease SM2 isoform; endonuclease, hydrolase, magnesium, signal;
1.10A {Serratia marcescens} SCOP: d.4.1.2 PDB: 1qae_A
1smn_A 1ql0_A
Length = 245
Score = 26.9 bits (59), Expect = 8.8
Identities = 9/39 (23%), Positives = 13/39 (33%)
Query: 145 HHGNGTNDAFYDDPDIFFLSTHQDGSYPGTGKIDEVGRG 183
+G + DP + T Y G +V RG
Sbjct: 50 TPASGKTRNWKTDPALNPADTLAPADYTGANAALKVDRG 88
>3dnz_A Thermolysin; hydrolase, metalloproteinase, calcium, metal-binding,
metalloprotease, protease, secreted, zinc, zymogen; HET:
LYS; 1.20A {Bacillus thermoproteolyticus} PDB: 1kjo_A*
1kjp_A* 1kkk_A* 1kl6_A* 1kr6_A* 1kro_A* 1ks7_A* 1kto_A*
1y3g_E* 2whz_A* 2wi0_A* 1kei_A* 3do0_A* 3do1_A* 3do2_A*
3fb0_A 3fbo_A 3fgd_A* 3flf_A* 3fv4_A* ...
Length = 316
Score = 27.0 bits (59), Expect = 8.8
Identities = 12/46 (26%), Positives = 19/46 (41%)
Query: 144 VHHGNGTNDAFYDDPDIFFLSTHQDGSYPGTGKIDEVGRGDGEGST 189
VH+ G N+AF++ + + P +G ID V T
Sbjct: 104 VHYSQGYNNAFWNGSQMVYGDGDGQTFIPLSGGIDVVAHELTHAVT 149
>3fi9_A Malate dehydrogenase; structural genomics, oxidoreductase, PSI-2,
protein structur initiative; 1.90A {Porphyromonas
gingivalis}
Length = 343
Score = 26.8 bits (60), Expect = 9.4
Identities = 10/39 (25%), Positives = 16/39 (41%), Gaps = 7/39 (17%)
Query: 8 RGSEIIELKN----FSPASVDDIASVHARAYVSGLEKAM 42
G+ II+L+ SP+ V + RA + G
Sbjct: 224 GGANIIKLRGRSSFQSPSYV---SIEMIRAAMGGEAFRW 259
>2z1e_A Hydrogenase expression/formation protein HYPE; [NIFE] hydrogenase
maturation, ATPase, transferase; 1.55A {Thermococcus
kodakarensis} SCOP: d.79.4.1 d.139.1.1 PDB: 2z1f_A
Length = 338
Score = 26.9 bits (60), Expect = 9.5
Identities = 8/39 (20%), Positives = 14/39 (35%)
Query: 197 GSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLD 235
G+G M + +VI+ I + A D +
Sbjct: 10 GAGGEIMEELLRDVILKTLTLKSAGGIGLDALDDGATIP 48
>2r0c_A REBC; flavin adenine dinucleotide, monooxygenase, oxidoreductase;
HET: FAD; 1.80A {Lechevalieria aerocolonigenes} PDB:
2r0g_A* 2r0p_A* 3ept_A*
Length = 549
Score = 27.0 bits (60), Expect = 9.8
Identities = 9/35 (25%), Positives = 12/35 (34%)
Query: 71 AAAGAGIALVDSVVAASKNRPDPPLGFALIRPPGH 105
A A + L A + L+RP GH
Sbjct: 492 AFADRHVPLETVTCHAPEIHALYERAHVLVRPDGH 526
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.319 0.137 0.404
Gapped
Lambda K H
0.267 0.0705 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,294,857
Number of extensions: 342523
Number of successful extensions: 1031
Number of sequences better than 10.0: 1
Number of HSP's gapped: 994
Number of HSP's successfully gapped: 50
Length of query: 327
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 233
Effective length of database: 4,077,219
Effective search space: 949992027
Effective search space used: 949992027
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (25.8 bits)